hub.pval.cutoff {dhga} R Documentation

Identification of hub genes in a Gene Co-expression Network based on gene connection significance values

Description

The function returns list of top ranked hub genes under a particular condition/trait

Usage

hub.pval.cutoff(x, beta, m, s, n)

Arguments

 x x is a data frame of gene expression values where rows represent genes and columns represent samples/time point under a particular condition/trait. beta beta is a soft threshold parameter determined from the scale free property of biological networks (Gene Co-expression Network). m m is a scalar representing sample size and is less than or equal to number of columns in x. s s is a scalar representing number of times each of the m samples will be resampled. n n is a scalar representing number of top ranked hub genes to be selected under that particular condition/trait

Value

The function returns a vector containing list of top ranked hub genes for that particular condition/trait

Author(s)

Samarendra Das and Baidya Nath Mandal

Examples

data(rice_salt)
x=as.data.frame(rice_salt)
beta=6
m=18
s=80
n=20
hub.pval.cutoff(x, beta, m, s, n)


[Package dhga version 0.1 Index]